How can I determine docking between receptor and ligand using DS or pymol after docking using HEX or Autodock?

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Annemarie Honegger

The Protein-Ligand Interaction Profiler does quite a good job: https://projects.biotec.tu-dresden.de/plip-web/plip/index Especially, it also lists pi-stacking and cation-pi interaction which many other tools do not list. Besides listing the interactions, it also generates a pymol session file to visualise the interactions.

Lalit Samant

Gm Mam.

Thanks a lot for valuable input.

Navaneet Chaturvedi

You can also use following link.

https://www.molnac.unisa.it/BioTools/cocomaps/

Thank you Navneet.

Rahul Ravichandran

You can also use UCSF CHIMERA for determining the docking interaction and the hydrogen bonding interaction between the ligand and the receptor & you can also find the amino acids that are playing role in it.